Query psy11919
Match_columns 453
No_of_seqs 203 out of 592
Neff 5.0
Searched_HMMs 46136
Date Fri Aug 16 22:18:34 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11919.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11919hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00405 Transferrin: Transfer 100.0 1.3E-76 2.9E-81 599.7 14.5 298 130-446 1-329 (330)
2 smart00094 TR_FER Transferrin. 100.0 3.2E-73 6.9E-78 575.4 20.5 299 130-446 1-331 (332)
3 COG3221 PhnD ABC-type phosphat 99.3 1.8E-11 4E-16 123.5 9.5 170 177-393 89-260 (299)
4 PF12974 Phosphonate-bd: ABC t 98.9 3.7E-10 8E-15 108.1 1.8 166 177-392 51-218 (243)
5 TIGR01098 3A0109s03R phosphate 98.0 6.9E-05 1.5E-09 71.5 11.7 176 165-390 68-253 (254)
6 TIGR03431 PhnD phosphonate ABC 97.7 0.0003 6.5E-09 69.2 11.8 209 167-437 65-282 (288)
7 TIGR01728 SsuA_fam ABC transpo 89.2 2.1 4.6E-05 40.9 8.7 79 214-330 83-161 (288)
8 TIGR01729 taurine_ABC_bnd taur 87.9 2 4.3E-05 42.5 7.8 112 177-330 49-160 (300)
9 TIGR02122 TRAP_TAXI TRAP trans 86.0 2.6 5.6E-05 41.5 7.4 143 213-397 122-287 (320)
10 cd00134 PBPb Bacterial peripla 84.6 9.4 0.0002 33.4 9.6 120 213-392 86-205 (218)
11 PF09084 NMT1: NMT1/THI5 like; 83.2 1 2.2E-05 41.9 3.0 82 169-257 29-116 (216)
12 PRK11553 alkanesulfonate trans 81.8 5.9 0.00013 39.4 8.0 58 177-238 78-135 (314)
13 smart00062 PBPb Bacterial peri 81.3 21 0.00045 31.1 10.5 121 213-393 87-207 (219)
14 PF03401 TctC: Tripartite tric 80.4 7.8 0.00017 38.7 8.3 135 213-392 79-230 (274)
15 PRK10797 glutamate and asparta 58.4 96 0.0021 31.2 10.5 70 306-391 187-256 (302)
16 COG2358 Imp TRAP-type uncharac 52.3 10 0.00023 39.4 2.5 112 127-250 25-155 (321)
17 COG0715 TauA ABC-type nitrate/ 50.4 13 0.00029 37.0 2.9 77 177-258 83-161 (335)
18 PRK11480 tauA taurine transpor 38.5 34 0.00074 34.5 3.7 110 177-330 73-182 (320)
19 PF13379 NMT1_2: NMT1-like fam 34.3 97 0.0021 29.8 6.0 131 214-396 92-237 (252)
20 PRK09495 glnH glutamine ABC tr 28.6 5.1E+02 0.011 24.5 10.6 70 306-393 161-230 (247)
21 COG3181 Uncharacterized protei 24.6 1.5E+02 0.0033 31.0 5.7 80 309-393 188-274 (319)
22 PF06395 CDC24: CDC24 Calponin 24.6 75 0.0016 27.3 2.9 40 379-426 41-81 (89)
23 PF11901 DUF3421: Protein of u 21.9 46 0.001 29.4 1.2 36 337-375 43-78 (119)
24 PRK00489 hisG ATP phosphoribos 20.3 73 0.0016 31.9 2.4 24 213-236 94-117 (287)
No 1
>PF00405 Transferrin: Transferrin; InterPro: IPR001156 Transferrins are eukaryotic iron-binding glycoproteins that control the level of free iron in biological fluids []. The proteins have arisen by duplication of a domain, each duplicated domain binding one iron atom. Members of the family include blood serotransferrin (siderophilin); milk lactotransferrin (lactoferrin); egg white ovotransferrin (conalbumin); and membrane-associated melanotransferrin. Additional members of this family include inhibitor of carbonic anhydrase (ICA; mammals), major yolk protein (sea urchins), saxiphilin (frog), pacifastin (crayfish), and TTF-1 (algae). Most family members contain two transferrin-like domains of around 340 amino acids, the result of an ancient duplication event []. Each of the duplicated domains can be further divided into two subdomains that form a cleft inside of which the iron atom is bound in iron-transporting transferrin []. The iron-coordinating residues consist of an aspartic acid, two tyrosines and a histidine, as well as an arginine that coordinates a requisite anion. In addition to iron and anion liganding residues, the transferrin-like domain contains conserved cysteine residues involved in disulphide bond formation. Human lactoferrin is a serine peptidase belonging to MEROPS peptidase family S60, clan SR. It is found at high concentrations in all human secretions, where it plays a major role in mucosal defence. Lactoferrin cleaves IgA1 protease at an arginine-rich region defined by amino acids RRSRRSVR and digests Hap at a similar arginine-rich sequence (VRSRRAAR). Ser259 and Lys73 form a catalytic dyad, reminiscent of a number of bacterial serine proteases. ; GO: 0008199 ferric iron binding, 0006826 iron ion transport, 0006879 cellular iron ion homeostasis, 0005576 extracellular region; PDB: 1JNF_A 1TFD_A 1JW1_A 1DTZ_A 2J4U_X 1I6Q_A 1BIY_A 1CE2_A 1H76_A 1F9B_A ....
Probab=100.00 E-value=1.3e-76 Score=599.69 Aligned_cols=298 Identities=35% Similarity=0.537 Sum_probs=256.5
Q ss_pred cccccccCccCchh--hhh-hhhhhccccCCCccceeeeccCCChhhhhh------hceeccCCCcccccc-cccccccc
Q psy11919 130 ADWRQYLPVYSNLA--SCK-LRSATHYQVDLTDISHWRRSSRNSSVKCLY------QDYLVNRFGSLGGAA-KSVWLPFQ 199 (453)
Q Consensus 130 vrW~~~~CV~s~le--KC~-~~~a~~~~~~i~pi~~~~CV~a~S~~dCl~------AD~~v~daed~~~A~-k~~l~~~~ 199 (453)
||| ||+|+.| ||+ |+.++.... .| .+.||++.++.|||+ ||++++|++++|+|+ +.+.+ +
T Consensus 1 VRw----Cv~s~~E~~KC~~~~~~~~~~~--~~--~i~Cv~~~s~~dCm~~I~~g~AD~v~ld~~~~y~A~~~~~~L--~ 70 (330)
T PF00405_consen 1 VRW----CVVSEAELKKCERMSKAFSSAG--RP--EISCVRATSREDCMRRIKKGEADAVTLDGGDVYIAGLRKYNL--K 70 (330)
T ss_dssp EEE----EEESHHHHHHHHHHHHHHTHTS--ST--SEEEEEESSHHHHHHHHHTTSSSBEEEEHHHHHHHHSTTTTE--E
T ss_pred CEE----eecChHHHHHHHHHHHHhhhcC--CC--CceeEeCCCHHHHHHHHhhccCCEEEeCchhhhhhhccccCC--E
Confidence 799 9999866 995 666655433 33 455799999999996 999999999999999 54443 7
Q ss_pred cccccccCC---CCcE-EEEEEEEcCCCCCCccccCCCCccCCCCCCCCcchHHHHHHHHcCccCC--CCCCcccccccc
Q psy11919 200 CRNLEKYGN---EKDL-LAVAVVKKDSKVQNFEDLRGLKSCHSGYMDSSGWVAPVYHLLEKGLIKN--DVCPYYKGVEQF 273 (453)
Q Consensus 200 pi~~E~y~~---~~~~-~aVAVVkk~s~~~sl~dLkGKKsCHtG~g~taGW~~Pv~~L~~~g~I~~--~~C~~~kavs~F 273 (453)
||++|.|+. .+.. |+||||||++. .+|+||||||+||||+++++||++||++|+++++|++ ..|++.+++++|
T Consensus 71 pi~~E~y~~~~~~~~~y~aVAVVkk~s~-~~l~~LrGkksCHtG~g~~aGW~~Pv~~L~~~~~i~~~~~~~~~~~avs~F 149 (330)
T PF00405_consen 71 PIAAEVYGSEEEPEASYYAVAVVKKSSN-ITLKDLRGKKSCHTGYGRTAGWNIPVGYLLEKGVIPWTGPDCDVEKAVSDF 149 (330)
T ss_dssp EEEEEEESSSSSEESEEEEEEEEETTSS--SGGGGTTSEEEESSTTTTTTTHHHHHHHHHHHHCCSSSTTSSHHHHHHHH
T ss_pred EeeeeeccccccccceeEEEEEEecCCC-cchhhhcCCCCCCcCcCCcccccccchhhhhcCcCCcccccchhhhHHhhh
Confidence 899999983 2234 99999999987 4799999999999999999999999999999999998 458889999999
Q ss_pred CCCCCccCCCCcccCCCCccccccccCC----------cccc-ccchhhhhhcCCCcEEEEechhhHHHHhcCCCCCCce
Q psy11919 274 FSGGSCVPGLEEKEKSESPSLEKICHNI----------TTIF-ATNTLQCLKMGDADVAFTNQVKVNEAIEEGIFKVDEI 342 (453)
Q Consensus 274 Fs~~SC~PG~~~~~~n~~~nLC~lC~g~----------d~Y~-~~GAlrCL~eG~GDVAFVk~~tV~~~~~~~~~~~~dy 342 (453)
|+ +||+||+... .+++||++|.|. ++|| |.||||||+||+||||||+|++|.+.... +...+||
T Consensus 150 F~-~sC~PGa~~~---~~~~LC~lC~g~~~~~C~~~~~e~y~G~~GAlrCL~eg~GDVAFv~~~tv~~~~~~-~~~~~dy 224 (330)
T PF00405_consen 150 FS-KSCVPGADKK---NYSNLCSLCKGDGESKCSCSSNEPYYGYEGALRCLVEGKGDVAFVKHTTVFENTDG-NNQADDY 224 (330)
T ss_dssp SS-EEE-TTSSTT---TTSGGGTTSTSSTTSTTTSSTTSTTSHHHHHHHHHHTTSSSEEEEETTHHHHHSTS-SSHSGGE
T ss_pred hc-Cccccccccc---cCCcccccccCCCCCcCCCCCcccCCCCCcceEEEecCCCcEEEEeccchhhhccc-ccccccE
Confidence 99 9999998653 579999999982 3799 99999999999999999999999986654 3346999
Q ss_pred EEecCCCCCccCCCCcCCcccccCCceEEEcCCCChhHHHHHHHHHHHHHHHhcC-CCCcccccCCCCCCCCccccCCCC
Q psy11919 343 EFLCSKGGRAPVSKAADCNLGVVPPHMVVTSNSKSNMEIDIIKHAIITAADLFSK-KPEIFKLFGSFMGKPDVLFLNPAT 421 (453)
Q Consensus 343 ~LLCpdGsr~pi~~~~~Cnl~~vP~~aVvtr~~~~~~~~~~I~~lL~~l~~lFG~-~~~~F~LF~S~~~~kNLLF~DsT~ 421 (453)
+||||||+|+|+++|++|||+++|||+||+|++.+ .+++|+++|.++|++||+ +.+.|+||+|+.+++||||+|+|+
T Consensus 225 ~lLCpdG~~~~v~~~~~C~l~~~p~~~vv~r~~~~--~~~~i~~~L~~~~~~fg~~~~~~f~lF~s~~~~~dllF~D~t~ 302 (330)
T PF00405_consen 225 ELLCPDGTRAPVSNYKPCNLGKVPWHAVVTRSDTS--KKDEIYNLLLKAQQLFGSNKSDDFQLFGSFSYGKDLLFKDSTK 302 (330)
T ss_dssp EEEETTSEEEEGGGGGGSSSEEEESEEEEEESSSS--GHHHHHHHHHHHHHHHSTTSTSSS-TTSSSTTSSSSSSBTTEE
T ss_pred EEEcCCCCccCcCCCCceeeeEecCceEEEcCccc--cHHHHHHHHHHHHHhhhcccccccccccccCCCCccccccccc
Confidence 99999999999999999999999999999998765 357999999999999994 478899999999889999999999
Q ss_pred ccccCCCC-ChHHHH--HHHHHHHhhcc
Q psy11919 422 GVESLPDQ-ATDVET--NFSNNMLSKVM 446 (453)
Q Consensus 422 ~L~~v~~~-~~~~y~--~y~~~~~~~i~ 446 (453)
+|+.|++. +|+.|+ +|+. ++..++
T Consensus 303 ~L~~i~~~~~~~~~lg~~y~~-~~~~l~ 329 (330)
T PF00405_consen 303 CLVPIPSSTDYQEYLGPDYYR-AMKSLR 329 (330)
T ss_dssp EEEE-TTTSSHHHHHHHHHHH-HHHHHH
T ss_pred eeEECCCCCCHHHhcCHHHHH-HHHHhc
Confidence 99999976 899996 7998 444443
No 2
>smart00094 TR_FER Transferrin.
Probab=100.00 E-value=3.2e-73 Score=575.36 Aligned_cols=299 Identities=31% Similarity=0.548 Sum_probs=254.5
Q ss_pred cccccccCccCchh--hhhhhhhhccccCCCccceeeeccCCChhhhhh------hceeccCCCcccccccccccccccc
Q psy11919 130 ADWRQYLPVYSNLA--SCKLRSATHYQVDLTDISHWRRSSRNSSVKCLY------QDYLVNRFGSLGGAAKSVWLPFQCR 201 (453)
Q Consensus 130 vrW~~~~CV~s~le--KC~~~~a~~~~~~i~pi~~~~CV~a~S~~dCl~------AD~~v~daed~~~A~k~~l~~~~pi 201 (453)
||| ||+++.| ||+.|.....+++.+ .+.||.+.|..+||+ ||++.++++++|+|++.+.+ +|+
T Consensus 1 vrw----Cv~s~~e~~KC~~~~~~~~~~~~~---~v~Cv~~~s~~~Ci~~I~~g~AD~a~ldg~~~y~A~~~~~l--~pi 71 (332)
T smart00094 1 VRW----CAVSNAEKSKCDQWSVNSRGRDVP---ALECVSASSTEECIKAIQKGEADAVTLDGGDVYTAGKPYNL--VPV 71 (332)
T ss_pred CEE----ecCCHHHHHHHHHHHHHHhhCCCC---ceEEEEcCCHHHHHHHHHCCCCCEEEECcHHHHhhcccCCc--eEE
Confidence 699 9999877 996444333333322 455799999999996 99999999999999865543 789
Q ss_pred cccccCCC-C--cE-EEEEEEEcCCCCCCccccCCCCccCCCCCCCCcchHHHHHHHHcCccCCCCCCccccccccCCCC
Q psy11919 202 NLEKYGNE-K--DL-LAVAVVKKDSKVQNFEDLRGLKSCHSGYMDSSGWVAPVYHLLEKGLIKNDVCPYYKGVEQFFSGG 277 (453)
Q Consensus 202 ~~E~y~~~-~--~~-~aVAVVkk~s~~~sl~dLkGKKsCHtG~g~taGW~~Pv~~L~~~g~I~~~~C~~~kavs~FFs~~ 277 (453)
++|.|..+ . +. |+||||||++++.+++||||||+||||+++++||++|+++|+++|+|++.+|+..+++++||+ +
T Consensus 72 ~~E~~~~~~~~~~~Y~aVaVVkk~S~i~sl~dLkGKksChtg~~stsGw~iP~~~L~~~g~i~~~~~~~~~avs~fFs-~ 150 (332)
T smart00094 72 FAENYGSEEEPETGYYAVAVVKKGSAIFTWNQLRGKKSCHTGVGRTAGWNIPMGLLYNKLVIRPPNCPFEKAVSKFFS-A 150 (332)
T ss_pred EEEeeccCCCCCceeEEEEEEECCCCCCCHHHhCCCceecCCCCCcchhHHHHHHHHHcCCCCCCCCcHHHHHHHHhh-c
Confidence 99999752 2 24 999999999999999999999999999999999999999999999999999998889999999 9
Q ss_pred CccCCCCcccCCCCccccccccCC--------cccc-ccchhhhhhcCCCcEEEEechhhHHHHhc-------CCCCCCc
Q psy11919 278 SCVPGLEEKEKSESPSLEKICHNI--------TTIF-ATNTLQCLKMGDADVAFTNQVKVNEAIEE-------GIFKVDE 341 (453)
Q Consensus 278 SC~PG~~~~~~n~~~nLC~lC~g~--------d~Y~-~~GAlrCL~eG~GDVAFVk~~tV~~~~~~-------~~~~~~d 341 (453)
||+||++.++ ++++||+||.|+ ++|| |+||||||+||+||||||+|+||.+++.. .+++++|
T Consensus 151 sC~PG~~~~~--~~~~LC~lC~g~~~C~~~~~e~Y~Gy~GA~rCL~eg~GdVAFvk~~tv~~~~~~~~~~~wa~~~~~~d 228 (332)
T smart00094 151 SCAPGADKPD--PNSNLCALCAGDNKCACSSHEPYYGYSGAFRCLAEGAGDVAFVKHSTVFENTDGKNGADWAKNLKRDD 228 (332)
T ss_pred cccCCCCCCC--CchhhHhhcCCCCccCCCCCCcccCcchhheeeccCCccEEEEecccHHhhcCCCCccccccccCccc
Confidence 9999998865 358999999973 3899 99999999999999999999999886542 1467899
Q ss_pred eEEecCCCCCccCCCCcCCcccccCCceEEEcCCCChhHHHHHHHHHHHHHHHhcC-CCCcccccCCCCCCCCccccCCC
Q psy11919 342 IEFLCSKGGRAPVSKAADCNLGVVPPHMVVTSNSKSNMEIDIIKHAIITAADLFSK-KPEIFKLFGSFMGKPDVLFLNPA 420 (453)
Q Consensus 342 y~LLCpdGsr~pi~~~~~Cnl~~vP~~aVvtr~~~~~~~~~~I~~lL~~l~~lFG~-~~~~F~LF~S~~~~kNLLF~DsT 420 (453)
|+||||||+|+||++|++|||+++|||+||+|++.. ..++..|+..+++||+ +.+.|+||+|+.+ +||||+|+|
T Consensus 229 y~lLC~dg~r~pi~~~~~C~la~~P~~~vv~~~~~~----~~~~~~ll~~~~~~g~~~~~~f~lf~s~~~-kdLlFkD~t 303 (332)
T smart00094 229 YELLCLDGTRKPVTEYKNCHLARVPSHAVVARKDKK----EDVIWELLNQQQKFGKDKPSLFQLFGSPTG-KDLLFKDSA 303 (332)
T ss_pred eEEECCCCCcCCCccCCcceeeeccCCeEEecccch----HHHHHHHHHHHHHhccCCCCccccccCCCC-Ccceeeccc
Confidence 999999999999999999999999999999999752 2445555555668994 4788999999965 999999999
Q ss_pred CccccCCCC-ChHHH--HHHHHHHHhhcc
Q psy11919 421 TGVESLPDQ-ATDVE--TNFSNNMLSKVM 446 (453)
Q Consensus 421 ~~L~~v~~~-~~~~y--~~y~~~~~~~i~ 446 (453)
++|+.++.. +|+.| .+|++ +++.++
T Consensus 304 ~~l~~i~~~~~~~~~lg~~y~~-~~~~l~ 331 (332)
T smart00094 304 KCLAKIPPKTDYELYLGEEYVT-AIQNLR 331 (332)
T ss_pred cchhhCCCCCchhhhcCHHHHH-HHHHhc
Confidence 999999866 89999 47988 555543
No 3
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=99.25 E-value=1.8e-11 Score=123.50 Aligned_cols=170 Identities=16% Similarity=0.208 Sum_probs=129.7
Q ss_pred hceeccCCCcccccccccccccccccccccCCCCc-EEEEEEEEcCCCCCCccccCCCCccCCCCCCCCcchHHHHHHHH
Q psy11919 177 QDYLVNRFGSLGGAAKSVWLPFQCRNLEKYGNEKD-LLAVAVVKKDSKVQNFEDLRGLKSCHSGYMDSSGWVAPVYHLLE 255 (453)
Q Consensus 177 AD~~v~daed~~~A~k~~l~~~~pi~~E~y~~~~~-~~aVAVVkk~s~~~sl~dLkGKKsCHtG~g~taGW~~Pv~~L~~ 255 (453)
.|++-..+.-+..|....+ ..+|+..-...++.. |+++.||++++++.+++||||||.+++...+++|+.+|+..|.+
T Consensus 89 ~D~A~~~~~a~~~a~~~~~-~~e~~~~~~~~dg~~~Y~S~~i~~~ds~i~sl~dlkgk~~af~d~~StSG~l~P~~~L~~ 167 (299)
T COG3221 89 VDIAWLGPSAYVEAVDRAL-AGEPLAQTVQKDGSPGYYSVIIVRADSPIKSLEDLKGKRFAFGDPDSTSGYLFPLYYLAK 167 (299)
T ss_pred eeEEecCchhHHHHHhhcc-cccceeeeeccCCCcceeEEEEEeCCCCcchHHHhcCCeEeccCCCcchhhHhHHHHHHH
Confidence 7888777764333332221 124443333333344 49999999999999999999999999999999999999999999
Q ss_pred cCccCCCCCCccccccccCCCCCccCCCCcccCCCCccccccccCCccccccchhhhhhcCCCcEEEEechhhHHHHhcC
Q psy11919 256 KGLIKNDVCPYYKGVEQFFSGGSCVPGLEEKEKSESPSLEKICHNITTIFATNTLQCLKMGDADVAFTNQVKVNEAIEEG 335 (453)
Q Consensus 256 ~g~I~~~~C~~~kavs~FFs~~SC~PG~~~~~~n~~~nLC~lC~g~d~Y~~~GAlrCL~eG~GDVAFVk~~tV~~~~~~~ 335 (453)
+|.+++ .+||+ ..=..|. |+-++.-+++|+.|||.+....+...-...
T Consensus 168 ~g~~d~---------~~~f~-~v~~~G~----------------------H~~a~~aV~nG~vDva~~~~~~~~~~~~~~ 215 (299)
T COG3221 168 EGGIDP---------DKFFG-EVIFSGG----------------------HDAAVLAVANGQVDVAAVNSSARGLLKKAA 215 (299)
T ss_pred hcCCCh---------hhhhc-eeeccCh----------------------HHHHHHHHHcCCceEEeccHHHHhhhhhcc
Confidence 986532 67888 5444443 777999999999999999988887633321
Q ss_pred CC-CCCceEEecCCCCCccCCCCcCCcccccCCceEEEcCCCChhHHHHHHHHHHHHHH
Q psy11919 336 IF-KVDEIEFLCSKGGRAPVSKAADCNLGVVPPHMVVTSNSKSNMEIDIIKHAIITAAD 393 (453)
Q Consensus 336 ~~-~~~dy~LLCpdGsr~pi~~~~~Cnl~~vP~~aVvtr~~~~~~~~~~I~~lL~~l~~ 393 (453)
.. ..++.++|. ++ ..+|.+.|++|++.+++.+++|+++|.++.+
T Consensus 216 ~~~~~~~l~vi~-----------~S---~~iP~~pi~vr~~L~~~~k~kl~~af~~l~~ 260 (299)
T COG3221 216 PEGVAEKLRVIW-----------KS---PLIPNDPIAVRSDLPADLKEKLRDAFLDLAK 260 (299)
T ss_pred cccchhhceEEE-----------ec---CCCCCCCEEEeCCCCHHHHHHHHHHHHhcCc
Confidence 22 347889984 34 6799999999999999999999999988765
No 4
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=98.91 E-value=3.7e-10 Score=108.14 Aligned_cols=166 Identities=20% Similarity=0.169 Sum_probs=114.4
Q ss_pred hceeccCCCcccccccccccccccccccccCCCCcE-EEEEEEEcCCCCCCccccCCCCccCCCCCCCCcchHHHHHH-H
Q psy11919 177 QDYLVNRFGSLGGAAKSVWLPFQCRNLEKYGNEKDL-LAVAVVKKDSKVQNFEDLRGLKSCHSGYMDSSGWVAPVYHL-L 254 (453)
Q Consensus 177 AD~~v~daed~~~A~k~~l~~~~pi~~E~y~~~~~~-~aVAVVkk~s~~~sl~dLkGKKsCHtG~g~taGW~~Pv~~L-~ 254 (453)
.|++...+..+..+..... ++|++.-....+... .++.||++++++.+++||||||.+++..++++||.+|...| .
T Consensus 51 ~D~~~~~~~~~~~~~~~~~--~~~la~~~~~~g~~~~~~~ivv~~ds~i~~l~dL~Gk~v~~~~~~s~sg~l~~~~~L~~ 128 (243)
T PF12974_consen 51 IDLAFMGPLPYVQARQRAG--VEPLATPVGPDGSPSYRSVIVVRADSPITSLADLKGKRVAFPDPSSTSGYLIPRYELLR 128 (243)
T ss_dssp -SEEE--HHHHHHHHHHSS--EEEEEEEEETTT-SCEEEEEEEETTSS--SHHHHGGSEEEEE-TT-TTTTHHHHHHTCC
T ss_pred ccEEEECcHHHHHHhhcCc--EEEEEEecccCCCcceeEEEEEECCCCCCChhhcCCCEEEEecCCccHHHHHHHHHHHH
Confidence 8999988876655554322 255544333223333 99999999999999999999999999999999999999999 4
Q ss_pred HcCccCCCCCCccccccccCCCCCccCCCCcccCCCCccccccccCCccccccchhhhhhcCCCcEEEEechhhHHHHhc
Q psy11919 255 EKGLIKNDVCPYYKGVEQFFSGGSCVPGLEEKEKSESPSLEKICHNITTIFATNTLQCLKMGDADVAFTNQVKVNEAIEE 334 (453)
Q Consensus 255 ~~g~I~~~~C~~~kavs~FFs~~SC~PG~~~~~~n~~~nLC~lC~g~d~Y~~~GAlrCL~eG~GDVAFVk~~tV~~~~~~ 334 (453)
+.|+- ..+||. .. ..|. +.++++-|..|..|+|++...++......
T Consensus 129 ~~Gl~----------~~~~~~-~~-~~~~----------------------~~~~~~~l~~G~~Da~~~~~~~~~~~~~~ 174 (243)
T PF12974_consen 129 EAGLD----------PGDDFK-QV-FVGS----------------------HDAVLEALLNGKADAAAIPSDAFERLEAE 174 (243)
T ss_dssp CCT------------HHHHSS-EE-EEE-----------------------HHHHHHHHHTTSSSEEEEEHHHHHHHHHH
T ss_pred HcCCC----------hhHcee-EE-EeCC----------------------HHHHHHHHHcCCccEEEEechhHHHHHHc
Confidence 66632 235665 32 1111 77899999999999999999888875443
Q ss_pred CCCCCCceEEecCCCCCccCCCCcCCcccccCCceEEEcCCCChhHHHHHHHHHHHHH
Q psy11919 335 GIFKVDEIEFLCSKGGRAPVSKAADCNLGVVPPHMVVTSNSKSNMEIDIIKHAIITAA 392 (453)
Q Consensus 335 ~~~~~~dy~LLCpdGsr~pi~~~~~Cnl~~vP~~aVvtr~~~~~~~~~~I~~lL~~l~ 392 (453)
+....+++++|- ++ ...|.+.++++++..+..+++|.++|.++.
T Consensus 175 ~~~~~~~~rvl~-----------~s---~~~p~~~~~~~~~~~~~~~~~l~~al~~~~ 218 (243)
T PF12974_consen 175 GPDIPSQLRVLW-----------TS---PPYPNWPLVASPDLPPELRQRLRDALLSLS 218 (243)
T ss_dssp -HHHHTTEEEEE-----------EE---EEEE--EEEEETTS-HHHHHHHHHHHHHTT
T ss_pred cCcccccEEEEE-----------Ee---CCCCCcEEEEeCCCCHHHHHHHHHHHHcCC
Confidence 222357899883 23 568999999999999888899999998865
No 5
>TIGR01098 3A0109s03R phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein. A subset of this model in which nearly all members exhibit genomic context with elements of phosphonate metabolism, particularly the C-P lyase system has been built (TIGR03431) as an equivalog. Nevertheless, there are members of this subfamily (TIGR01098) which show up sporadically on a phylogenetic tree that also show phosphonate context and are most likely competent to transport phosphonates.
Probab=97.99 E-value=6.9e-05 Score=71.51 Aligned_cols=176 Identities=18% Similarity=0.195 Sum_probs=110.6
Q ss_pred eccCCChhhhhh------hceeccCCCccccc-cccccccc-ccccccccCCCCcE-EEEEEEEcCCCCCCccccCCCCc
Q psy11919 165 RSSRNSSVKCLY------QDYLVNRFGSLGGA-AKSVWLPF-QCRNLEKYGNEKDL-LAVAVVKKDSKVQNFEDLRGLKS 235 (453)
Q Consensus 165 CV~a~S~~dCl~------AD~~v~daed~~~A-~k~~l~~~-~pi~~E~y~~~~~~-~aVAVVkk~s~~~sl~dLkGKKs 235 (453)
.+...+..++++ .|++...+..+..+ ......++ .|. .+.++... +.+.||++++++.+++||+|||.
T Consensus 68 ~~~~~~~~~~~~~l~~g~~Di~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~lvv~~d~~i~~~~dL~gk~I 144 (254)
T TIGR01098 68 LFVATDYSAVIEAMRFGRVDIAWFGPSSYVLAHYRANAEVFALTA---VSTDGSPGYYSVIIVKADSPIKSLKDLKGKTF 144 (254)
T ss_pred EEeCCCHHHHHHHHHcCCccEEEECcHHHHHHHHhcCCceEEeec---cccCCCCceEEEEEEECCCCCCChHHhcCCEE
Confidence 355556677774 89998777554332 12211111 111 11111122 56888899999999999999999
Q ss_pred cCCCCCCCCcchHHHHHHHHcCccCCCCCCccccccccCCCCCccCCCCcccCCCCccccccccCCcccc-ccchhhhhh
Q psy11919 236 CHSGYMDSSGWVAPVYHLLEKGLIKNDVCPYYKGVEQFFSGGSCVPGLEEKEKSESPSLEKICHNITTIF-ATNTLQCLK 314 (453)
Q Consensus 236 CHtG~g~taGW~~Pv~~L~~~g~I~~~~C~~~kavs~FFs~~SC~PG~~~~~~n~~~nLC~lC~g~d~Y~-~~GAlrCL~ 314 (453)
+.++.+.+.+|.++...|.+.+.+... +++. . +. .+. +..+++-|.
T Consensus 145 ~~~~~~s~~~~~~~~~~l~~~~~~~~~---------~~~~-~--i~---------------------~~~~~~~~~~al~ 191 (254)
T TIGR01098 145 AFGDPASTSGYLVPRYQLKKEGGLDAD---------GFFS-E--VV---------------------FSGSHDASALAVA 191 (254)
T ss_pred EeeCCCCccchHhHHHHHHHhcCCChH---------Hhhh-h--ee---------------------ecCchHHHHHHHH
Confidence 999888778888888888776533211 0111 0 00 000 345789999
Q ss_pred cCCCcEEEEechhhHHHHhcCCCCCCceEEecCCCCCccCCCCcCCcccccCCceEEEcCCCChhHHHHHHHHHHH
Q psy11919 315 MGDADVAFTNQVKVNEAIEEGIFKVDEIEFLCSKGGRAPVSKAADCNLGVVPPHMVVTSNSKSNMEIDIIKHAIIT 390 (453)
Q Consensus 315 eG~GDVAFVk~~tV~~~~~~~~~~~~dy~LLCpdGsr~pi~~~~~Cnl~~vP~~aVvtr~~~~~~~~~~I~~lL~~ 390 (453)
.|+.|++++...++............+|+++-.. ...|..++++|++.....++.|.+.|.+
T Consensus 192 ~G~~Da~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~l~~~i~~~l~~ 253 (254)
T TIGR01098 192 NGKVDAATNNSSAIGRLKKRGPSDMKKVRVIWKS--------------PLIPNDPIAVRKDLPPELKEKIRDAFLT 253 (254)
T ss_pred cCCCCeEEecHHHHHHHHHhCccchhheEEEEec--------------CCCCCCCEEEECCCCHHHHHHHHHHHhh
Confidence 9999999998887765333211223578887431 1234567899999777677888887764
No 6
>TIGR03431 PhnD phosphonate ABC transporter, periplasmic phosphonate binding protein. Note that this model does not identify all phnD-subfamily genes with evident phosphonate context, but all sequences above the trusted context may be inferred to bind phosphonate compounds even in the absence of such context. Furthermore, there is ample evidence to suggest that many other members of the TIGR01098 subfamily have a different primary function.
Probab=97.74 E-value=0.0003 Score=69.16 Aligned_cols=209 Identities=18% Similarity=0.230 Sum_probs=117.7
Q ss_pred cCCChhhhhh------hceeccCCCcccccc-cccccccccccccccCCCC-cEEEEEEEEcCCCCCCccccCCCCccCC
Q psy11919 167 SRNSSVKCLY------QDYLVNRFGSLGGAA-KSVWLPFQCRNLEKYGNEK-DLLAVAVVKKDSKVQNFEDLRGLKSCHS 238 (453)
Q Consensus 167 ~a~S~~dCl~------AD~~v~daed~~~A~-k~~l~~~~pi~~E~y~~~~-~~~aVAVVkk~s~~~sl~dLkGKKsCHt 238 (453)
...+..++++ .|++...+..+..+. .... .++....+.+.. .++.+.||++++++.+++||+|||.+.+
T Consensus 65 ~~~~~~~~~~al~~g~~D~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~y~~~lvv~~ds~i~sl~DL~Gk~v~~~ 141 (288)
T TIGR03431 65 FATDYAGVIEGMRFGKVDIAWYGPSSYAEAYQKANA---EAFAIEVNADGSTGYYSVLIVKKDSPIKSLEDLKGKTFGFV 141 (288)
T ss_pred eCCCHHHHHHHHHcCCccEEEEChHHHHHHHHhcCC---eEEEEeccCCCCCceEEEEEEeCCCCCCcHHHhCCCEEEee
Confidence 3456667764 888876654332211 1111 111111111111 2256788899999999999999999999
Q ss_pred CCCCCCcchHHHHHHHHcCccCCCCCCccccccccCCCCCccCCCCcccCCCCccccccccCCccccccchhhhhhcCCC
Q psy11919 239 GYMDSSGWVAPVYHLLEKGLIKNDVCPYYKGVEQFFSGGSCVPGLEEKEKSESPSLEKICHNITTIFATNTLQCLKMGDA 318 (453)
Q Consensus 239 G~g~taGW~~Pv~~L~~~g~I~~~~C~~~kavs~FFs~~SC~PG~~~~~~n~~~nLC~lC~g~d~Y~~~GAlrCL~eG~G 318 (453)
+.+++.++.++...+.+..-+ ...+||. ..=..|. +.-++.-|.+|+.
T Consensus 142 ~~~s~~~~~~~~~~l~~~~g~---------~~~~~~~-~v~~~~~----------------------~~~~~~al~~G~v 189 (288)
T TIGR03431 142 DPNSTSGFLVPSYYLFKKNGI---------KPKEYFK-KVTFSGS----------------------HEAAILAVANGTV 189 (288)
T ss_pred CCCcchhhHHHHHHHHHhcCC---------ChHHhHH-hheecCc----------------------hHHHHHHHHcCCC
Confidence 888888998887766443211 1123332 1000010 3346788999999
Q ss_pred cEEEEechhhHHHHhcCCCCC-CceEEecCCCCCccCCCCcCCcccccCCceEEEcCCCChhHHHHHHHHHHHHHHHhcC
Q psy11919 319 DVAFTNQVKVNEAIEEGIFKV-DEIEFLCSKGGRAPVSKAADCNLGVVPPHMVVTSNSKSNMEIDIIKHAIITAADLFSK 397 (453)
Q Consensus 319 DVAFVk~~tV~~~~~~~~~~~-~dy~LLCpdGsr~pi~~~~~Cnl~~vP~~aVvtr~~~~~~~~~~I~~lL~~l~~lFG~ 397 (453)
|++++....+......+.... .+++.+-. + ...|..+++++++.....++.|.++|.++.+
T Consensus 190 Da~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~------------~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~---- 251 (288)
T TIGR03431 190 DAATTNDENLDRMIRKGQPDAMEDLRIIWK--S------------PLIPNGPIVYRKDLPADLKAKIRKAFLNYHK---- 251 (288)
T ss_pred CeEeccHHHHHHHHHcCCCCchhheEEEEE--c------------CCCCCCcEEEeCCCCHHHHHHHHHHHHhcCC----
Confidence 999998877766544322222 44666521 0 1123345888888765556677777665443
Q ss_pred CCCcccccCCCCCCCCccccCCCCccccCCCCChHHHHHH
Q psy11919 398 KPEIFKLFGSFMGKPDVLFLNPATGVESLPDQATDVETNF 437 (453)
Q Consensus 398 ~~~~F~LF~S~~~~kNLLF~DsT~~L~~v~~~~~~~y~~y 437 (453)
.+.++. -+++.--..+|.++++.||..+.+.
T Consensus 252 -~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~ 282 (288)
T TIGR03431 252 -TDKACF--------EKIAGGDLKGFVAASDKDYDPIRDL 282 (288)
T ss_pred -CcHHHH--------HhhhcccccCeEECCHHHhHHHHHH
Confidence 222221 1222212378887775566665543
No 7
>TIGR01728 SsuA_fam ABC transporter, substrate-binding protein, aliphatic sulfonates family. Members of this family are substrate-binding periplasmic proteins of ABC transporters. This subfamily includes SsuA, a member of a transporter operon needed to obtain sulfur from aliphatic sulfonates. Related proteins outside the scope of this model include taurine (NH2-CH2-CH2-S03H) binding proteins, the probable sulfate ester binding protein AtsR, and the probable aromatic sulfonate binding protein AsfC. All these families make sulfur available when Cys and sulfate levels are low. Please note that phylogenetic analysis by neighbor-joining suggests that a number of sequences belonging to this family have been excluded because of scoring lower than taurine-binding proteins.
Probab=89.16 E-value=2.1 Score=40.91 Aligned_cols=79 Identities=23% Similarity=0.274 Sum_probs=48.3
Q ss_pred EEEEEEcCCCCCCccccCCCCccCCCCCCCCcchHHHHHHHHcCccCCCCCCccccccccCCCCCccCCCCcccCCCCcc
Q psy11919 214 AVAVVKKDSKVQNFEDLRGLKSCHSGYMDSSGWVAPVYHLLEKGLIKNDVCPYYKGVEQFFSGGSCVPGLEEKEKSESPS 293 (453)
Q Consensus 214 aVAVVkk~s~~~sl~dLkGKKsCHtG~g~taGW~~Pv~~L~~~g~I~~~~C~~~kavs~FFs~~SC~PG~~~~~~n~~~n 293 (453)
.+.|+++++++.+++||+|||...+. + +....+....|.+.|+ +.. .+.-.+. .
T Consensus 83 ~~~v~~~~~~i~s~~dL~Gk~i~~~~-~-~~~~~~~~~~l~~~G~-~~~------~v~~~~~-~---------------- 136 (288)
T TIGR01728 83 TAIVVIKGSPIRTVADLKGKRIAVPK-G-GSGHDLLLRALLKAGL-SGD------DVTILYL-G---------------- 136 (288)
T ss_pred eEEEECCCCCCCCHHHcCCCEEEecC-C-ccHHHHHHHHHHHcCC-Ccc------ceeEEec-C----------------
Confidence 44567888899999999999987653 2 3334444444444443 211 1111111 0
Q ss_pred ccccccCCccccccchhhhhhcCCCcEEEEechhhHH
Q psy11919 294 LEKICHNITTIFATNTLQCLKMGDADVAFTNQVKVNE 330 (453)
Q Consensus 294 LC~lC~g~d~Y~~~GAlrCL~eG~GDVAFVk~~tV~~ 330 (453)
...++..|..|..|++++.......
T Consensus 137 ------------~~~~~~al~~g~vda~~~~~p~~~~ 161 (288)
T TIGR01728 137 ------------PSDARAAFAAGQVDAWAIWEPWGSA 161 (288)
T ss_pred ------------cHHHHHHHHCCCCCEEEeccchHhH
Confidence 3456788999999999997655544
No 8
>TIGR01729 taurine_ABC_bnd taurine ABC transporter, periplasmic binding protein. This model identifies a cluster of ABC transporter periplasmic substrate binding proteins, apparently specific for taurine. Transport systems for taurine (NH2-CH2-CH2-SO3H), sulfonates, and sulfate esters import sulfur when sulfate levels are low. The most closely related proteins outside this family are putative aliphatic sulfonate binding proteins (TIGR01728).
Probab=87.87 E-value=2 Score=42.53 Aligned_cols=112 Identities=16% Similarity=0.100 Sum_probs=61.0
Q ss_pred hceeccCCCcccccccccccccccccccccCCCCcEEEEEEEEcCCCCCCccccCCCCccCCCCCCCCcchHHHHHHHHc
Q psy11919 177 QDYLVNRFGSLGGAAKSVWLPFQCRNLEKYGNEKDLLAVAVVKKDSKVQNFEDLRGLKSCHSGYMDSSGWVAPVYHLLEK 256 (453)
Q Consensus 177 AD~~v~daed~~~A~k~~l~~~~pi~~E~y~~~~~~~aVAVVkk~s~~~sl~dLkGKKsCHtG~g~taGW~~Pv~~L~~~ 256 (453)
.|+++....-+..+.... .|++-++...+.. .....|+++++++.+++||||||.-.+. + +++...-+..|.+.
T Consensus 49 iD~~~~~~~~~~~a~~~g-~~~~~v~~~~~~~---~~~~lv~~~~s~I~s~~DLkGK~Igv~~-~-s~~~~~l~~~L~~~ 122 (300)
T TIGR01729 49 VPIGVIGSSPLAAAASRG-VPIELFWILDNIG---KSEALVAREGSGIEKPEDLKGKNVAVPF-V-STTHYSLLAALKHW 122 (300)
T ss_pred CCEeccCCCHHHHHHHCC-CCeEEEEEeccCC---ccceEEecCCCCCCChhHcCCCEEEeCC-C-CcHHHHHHHHHHHc
Confidence 788876544333333222 2333233222211 1345678889999999999999965542 2 33344445556555
Q ss_pred CccCCCCCCccccccccCCCCCccCCCCcccCCCCccccccccCCccccccchhhhhhcCCCcEEEEechhhHH
Q psy11919 257 GLIKNDVCPYYKGVEQFFSGGSCVPGLEEKEKSESPSLEKICHNITTIFATNTLQCLKMGDADVAFTNQVKVNE 330 (453)
Q Consensus 257 g~I~~~~C~~~kavs~FFs~~SC~PG~~~~~~n~~~nLC~lC~g~d~Y~~~GAlrCL~eG~GDVAFVk~~tV~~ 330 (453)
|+-+ .+ ++ +.. .+ ...+...|..|..|.+++-...+.+
T Consensus 123 Gl~~-~d---v~----~v~----~~------------------------~~~~~~al~~G~vDa~~~~~p~~~~ 160 (300)
T TIGR01729 123 KTDP-RE---VN----ILN----LK------------------------PPQIVAAWQRGDIDAAYVWPPALSE 160 (300)
T ss_pred CCCh-hh---eE----EEe----cC------------------------cHHHHHHHHcCCcCEEEEecHHHHH
Confidence 5321 11 11 111 00 2246778899999999997765554
No 9
>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family. This family is one of at least three major families of extracytoplasmic solute receptor (ESR) for TRAP (Tripartite ATP-independent Periplasmic Transporter) transporters. The others are the DctP (TIGR00787) and SmoM (pfam03480) families. These transporters are secondary (driven by an ion gradient) but composed of three polypeptides, although in some species the 4-TM and 12-TM integral membrane proteins are fused. Substrates for this transporter family are not fully characterized but, besides C4 dicarboxylates, may include mannitol and other compounds.
Probab=85.95 E-value=2.6 Score=41.50 Aligned_cols=143 Identities=20% Similarity=0.205 Sum_probs=80.8
Q ss_pred EEEEEEEcCCCCCCccccCCCCccCCCCCCCCcchHHHHHHHHcCccCCCCCCccccccccCCCCCccCCCCcccCCCCc
Q psy11919 213 LAVAVVKKDSKVQNFEDLRGLKSCHSGYMDSSGWVAPVYHLLEKGLIKNDVCPYYKGVEQFFSGGSCVPGLEEKEKSESP 292 (453)
Q Consensus 213 ~aVAVVkk~s~~~sl~dLkGKKsCHtG~g~taGW~~Pv~~L~~~g~I~~~~C~~~kavs~FFs~~SC~PG~~~~~~n~~~ 292 (453)
..+.||++++++.+++||+||+......+ .+....+..+.++.-+.+ .++.. +
T Consensus 122 ~~~lvv~~d~~i~sl~dL~gk~v~~~~~~--s~~~~~~~~~l~~~G~~~---------~~~~~----v------------ 174 (320)
T TIGR02122 122 YIQIVVRKDSGIKTVADLKGKRVAVGAPG--SGTELNARAVLKAAGLTY---------DDVKK----V------------ 174 (320)
T ss_pred cEEEEEECCCCCCcHHHcCCCEEecCCCC--cchHHHHHHHHHHcCCCH---------HHccc----h------------
Confidence 45578899999999999999998765333 344444444444321211 01100 0
Q ss_pred cccccccCCcccc-ccchhhhhhcCCCcEEEEech----hhHHHHhcCCCCCCceEEecCCCC-Cc----------cC--
Q psy11919 293 SLEKICHNITTIF-ATNTLQCLKMGDADVAFTNQV----KVNEAIEEGIFKVDEIEFLCSKGG-RA----------PV-- 354 (453)
Q Consensus 293 nLC~lC~g~d~Y~-~~GAlrCL~eG~GDVAFVk~~----tV~~~~~~~~~~~~dy~LLCpdGs-r~----------pi-- 354 (453)
.|- +..++.-|.+|+.|+++.... .+.+... ..+.++|-..+. |. +.
T Consensus 175 ----------~~~~~~~~~~al~~G~vDa~~~~~~~~~~~~~~~~~-----~~~l~~l~~~~~~~~~~~~~~p~~~~~~i 239 (320)
T TIGR02122 175 ----------EYLGYAEAADALKDGKIDAAFYTAGTPTAAITELAT-----SLDIRIVPISGEKVEKLREKYPFYRKGVI 239 (320)
T ss_pred ----------hcCCHHHHHHHHHCCCccEEEEecCCChHHHHHHHh-----cCCeEEEeCCHHHHHHHHHhCCceEeeec
Confidence 011 445677788888888887622 3444322 244555544321 00 00
Q ss_pred --CCCcC--Ccc-cccCCceEEEcCCCChhHHHHHHHHHHHHHHHhcC
Q psy11919 355 --SKAAD--CNL-GVVPPHMVVTSNSKSNMEIDIIKHAIITAADLFSK 397 (453)
Q Consensus 355 --~~~~~--Cnl-~~vP~~aVvtr~~~~~~~~~~I~~lL~~l~~lFG~ 397 (453)
..|.. =-+ ...-|.+++++++.+++...++.++|.+..+.|..
T Consensus 240 p~g~~~~~~~~~~~~~~~~~~~~~~~~p~~~v~~l~~a~~e~~~~~~~ 287 (320)
T TIGR02122 240 PAGTYPGQDEDVPTLAVPAALVTSSDVPEDLVYQITKAIFENLDELKD 287 (320)
T ss_pred cCCCCCCCCCCcceEEEEEEEEEcCCCCHHHHHHHHHHHHhCHHHHHH
Confidence 01110 001 34556789999999988778888888777666653
No 10
>cd00134 PBPb Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic ions. PBPs have two cell-membrane translocation functions: bind substrate, and interact with the membrane bound complex. A diverse group of periplasmic transport receptors for lysine/arginine/ornithine (LAO), glutamine, histidine, sulfate, phosphate, molybdate, and methanol are included in the PBPb CD.
Probab=84.56 E-value=9.4 Score=33.44 Aligned_cols=120 Identities=19% Similarity=0.282 Sum_probs=69.7
Q ss_pred EEEEEEEcCCCCCCccccCCCCccCCCCCCCCcchHHHHHHHHcCccCCCCCCccccccccCCCCCccCCCCcccCCCCc
Q psy11919 213 LAVAVVKKDSKVQNFEDLRGLKSCHSGYMDSSGWVAPVYHLLEKGLIKNDVCPYYKGVEQFFSGGSCVPGLEEKEKSESP 292 (453)
Q Consensus 213 ~aVAVVkk~s~~~sl~dLkGKKsCHtG~g~taGW~~Pv~~L~~~g~I~~~~C~~~kavs~FFs~~SC~PG~~~~~~n~~~ 292 (453)
..+.|+++++++.+++||+|++.+.. . |+.. ...+.+. ... .--..+.
T Consensus 86 ~~~~~~~~~~~~~~~~dl~g~~i~~~-~----~~~~-~~~~~~~--~~~-------~~~~~~~----------------- 133 (218)
T cd00134 86 GQVILVKKGSPIKSVKDLKGKKVAVQ-K----GSTA-EKYLKKA--LPE-------AKVVSYD----------------- 133 (218)
T ss_pred cEEEEEECCCCCCChHHhCCCEEEEE-c----CchH-HHHHHHh--CCc-------ccEEEeC-----------------
Confidence 56778999988889999999999876 1 2221 1122221 100 0000111
Q ss_pred cccccccCCccccccchhhhhhcCCCcEEEEechhhHHHHhcCCCCCCceEEecCCCCCccCCCCcCCcccccCCceEEE
Q psy11919 293 SLEKICHNITTIFATNTLQCLKMGDADVAFTNQVKVNEAIEEGIFKVDEIEFLCSKGGRAPVSKAADCNLGVVPPHMVVT 372 (453)
Q Consensus 293 nLC~lC~g~d~Y~~~GAlrCL~eG~GDVAFVk~~tV~~~~~~~~~~~~dy~LLCpdGsr~pi~~~~~Cnl~~vP~~aVvt 372 (453)
+ .+.++.=|..|.+|++++....+...... . ..+++++=. . ....+...+++
T Consensus 134 -------~-----~~~~~~~l~~g~~d~~~~~~~~~~~~~~~--~-~~~l~~~~~-------~------~~~~~~~~~~~ 185 (218)
T cd00134 134 -------D-----NAEALAALENGRADAVIVDEIALAALLKK--H-PPELKIVGP-------S------IDLEPLGFGVA 185 (218)
T ss_pred -------C-----HHHHHHHHHcCCccEEEeccHHHHHHHHh--c-CCCcEEecc-------c------cCCCccceEEE
Confidence 0 45678889999999999998887764433 1 345555411 1 12344445555
Q ss_pred cCCCChhHHHHHHHHHHHHH
Q psy11919 373 SNSKSNMEIDIIKHAIITAA 392 (453)
Q Consensus 373 r~~~~~~~~~~I~~lL~~l~ 392 (453)
+..........+.+++.++.
T Consensus 186 ~~~~~~~l~~~~~~~l~~~~ 205 (218)
T cd00134 186 VGKDNKELLDAVNKALKELR 205 (218)
T ss_pred EcCCCHHHHHHHHHHHHHHH
Confidence 55444445567777777664
No 11
>PF09084 NMT1: NMT1/THI5 like; InterPro: IPR015168 This entry is found in the NMT1 and THI5 proteins. These proteins are proposed to be required for the biosynthesis of the pyrimidine moiety of thiamine [, , ]. They are regulated by thiamine []. ; PDB: 2X26_A 3E4R_A 3KSJ_A 3KSX_A 3UIF_A 4DDD_A 1US4_A 1US5_A 3IX1_B 2X7P_A ....
Probab=83.21 E-value=1 Score=41.87 Aligned_cols=82 Identities=22% Similarity=0.030 Sum_probs=48.0
Q ss_pred CChhhhhh------hceeccCCCcccccccccccccccccccccCCCCcEEEEEEEEcCCCCCCccccCCCCccCCCCCC
Q psy11919 169 NSSVKCLY------QDYLVNRFGSLGGAAKSVWLPFQCRNLEKYGNEKDLLAVAVVKKDSKVQNFEDLRGLKSCHSGYMD 242 (453)
Q Consensus 169 ~S~~dCl~------AD~~v~daed~~~A~k~~l~~~~pi~~E~y~~~~~~~aVAVVkk~s~~~sl~dLkGKKsCHtG~g~ 242 (453)
.+..+++. +|+++.....+..++.... +++-++..... .....|+++++.+.+++||||||.--+. +
T Consensus 29 ~~~~~~~~~l~~G~~D~~~~~~~~~~~~~~~g~-~~~~i~~~~~~----~~~~l~~~~~s~i~~~~DLkGK~i~v~~-~- 101 (216)
T PF09084_consen 29 GGGGDVLEALASGKADIAVAGPDAVLFARAKGA-DIKIIAASYQS----SPNALVVRKDSGIKSPADLKGKKIGVSR-G- 101 (216)
T ss_dssp SSHHHHHHHHHTTSHSEEEEECHHHHHHHHTTS-TEEEEEEEEEE----CCEEEEEETTTS-SSGGGGTTSEEEEST-T-
T ss_pred cChhHHHHHHhcCCceEEeccchHHHHHHhcCC-eeEEEEEecCC----CceEEEEeccCCCCCHHHhCCCEEEEec-C-
Confidence 45556664 8998888766665554433 33333332211 1234567788889999999999986655 3
Q ss_pred CCcchHHHHHHHHcC
Q psy11919 243 SSGWVAPVYHLLEKG 257 (453)
Q Consensus 243 taGW~~Pv~~L~~~g 257 (453)
+.++..-...|.+.|
T Consensus 102 s~~~~~~~~~l~~~g 116 (216)
T PF09084_consen 102 SSSEYFLRALLKKNG 116 (216)
T ss_dssp SHHHHHHHHHHHHTT
T ss_pred cchhHHHHHHHHHhc
Confidence 223444344444444
No 12
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=81.80 E-value=5.9 Score=39.39 Aligned_cols=58 Identities=17% Similarity=0.033 Sum_probs=35.0
Q ss_pred hceeccCCCcccccccccccccccccccccCCCCcEEEEEEEEcCCCCCCccccCCCCccCC
Q psy11919 177 QDYLVNRFGSLGGAAKSVWLPFQCRNLEKYGNEKDLLAVAVVKKDSKVQNFEDLRGLKSCHS 238 (453)
Q Consensus 177 AD~~v~daed~~~A~k~~l~~~~pi~~E~y~~~~~~~aVAVVkk~s~~~sl~dLkGKKsCHt 238 (453)
.|++.........+.... .+++.+..+.+.. ...+.||++++++.+++||+||+...+
T Consensus 78 iDia~~~~~~~~~~~~~g-~~~~~v~~~~~~~---~~~~lvv~~~s~i~s~~dL~Gk~I~~~ 135 (314)
T PRK11553 78 IDLGSTGDIPPIFAQAAG-ADLVYVGVEPPKP---KAEVILVAENSPIKTVADLKGHKVAFQ 135 (314)
T ss_pred CCEEccCCHHHHHHHhCC-CCEEEEEEecCCC---cceEEEEeCCCCCCCHHHhCCCEEeec
Confidence 788776432222222222 2334444444421 145778899999999999999997764
No 13
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=81.27 E-value=21 Score=31.06 Aligned_cols=121 Identities=19% Similarity=0.205 Sum_probs=66.6
Q ss_pred EEEEEEEcCCCCCCccccCCCCccCCCCCCCCcchHHHHHHHHcCccCCCCCCccccccccCCCCCccCCCCcccCCCCc
Q psy11919 213 LAVAVVKKDSKVQNFEDLRGLKSCHSGYMDSSGWVAPVYHLLEKGLIKNDVCPYYKGVEQFFSGGSCVPGLEEKEKSESP 292 (453)
Q Consensus 213 ~aVAVVkk~s~~~sl~dLkGKKsCHtG~g~taGW~~Pv~~L~~~g~I~~~~C~~~kavs~FFs~~SC~PG~~~~~~n~~~ 292 (453)
..+.|+++++++.+++||+|++.+-.. |+.. ...+...+ + . .--.++. .
T Consensus 87 ~~~~~~~~~~~~~~~~dL~g~~i~~~~-----g~~~-~~~~~~~~--~--~-----~~~~~~~-~--------------- 135 (219)
T smart00062 87 GQVILVRKDSPIKSLEDLKGKKVAVVA-----GTTG-EELLKKLY--P--E-----AKIVSYD-S--------------- 135 (219)
T ss_pred eeEEEEecCCCCCChHHhCCCEEEEec-----CccH-HHHHHHhC--C--C-----ceEEEcC-C---------------
Confidence 346678888889999999999987654 2222 22222210 0 0 0000111 0
Q ss_pred cccccccCCccccccchhhhhhcCCCcEEEEechhhHHHHhcCCCCCCceEEecCCCCCccCCCCcCCcccccCCceEEE
Q psy11919 293 SLEKICHNITTIFATNTLQCLKMGDADVAFTNQVKVNEAIEEGIFKVDEIEFLCSKGGRAPVSKAADCNLGVVPPHMVVT 372 (453)
Q Consensus 293 nLC~lC~g~d~Y~~~GAlrCL~eG~GDVAFVk~~tV~~~~~~~~~~~~dy~LLCpdGsr~pi~~~~~Cnl~~vP~~aVvt 372 (453)
..-++.-|..|..|++++....+...... ....++.++-+.. .......+++
T Consensus 136 -------------~~~~~~~l~~g~~d~~~~~~~~~~~~~~~--~~~~~~~~~~~~~-------------~~~~~~~~~~ 187 (219)
T smart00062 136 -------------QAEALAALKAGRADAAVADAPALAALVKQ--HGLPELKIVGDPL-------------DTPEGYAFAV 187 (219)
T ss_pred -------------HHHHHHHhhcCcccEEEeccHHHHHHHHh--cCCCceeeccCCC-------------CCCcceEEEE
Confidence 34577889999999999988877653322 1124555542110 0114455666
Q ss_pred cCCCChhHHHHHHHHHHHHHH
Q psy11919 373 SNSKSNMEIDIIKHAIITAAD 393 (453)
Q Consensus 373 r~~~~~~~~~~I~~lL~~l~~ 393 (453)
+++.. ..++.+.++|.++.+
T Consensus 188 ~~~~~-~~~~~~~~~l~~~~~ 207 (219)
T smart00062 188 RKGDP-ELLDKINKALKELKA 207 (219)
T ss_pred ECCCH-HHHHHHHHHHHHHHh
Confidence 66532 344566666666543
No 14
>PF03401 TctC: Tripartite tricarboxylate transporter family receptor; InterPro: IPR005064 Bordetella pertussis, the causative agent of human whooping cough (pertussis), is an obligate human pathogen with diverse high-affinity transport systems for the assimilation of iron, a biometal that is essential for growth []. Periplasmic binding proteins of a new family, particularly well represented in this organism (and more generally in beta-proteobacteria), have been called Bug receptors []. They adopt a characteristic Venus flytrap fold with two globular domains bisected by a ligand-binding cleft. The family is specific for carboxylated solutes, with a characteristic mode of binding involving two highly conserved beta strand-beta turn-alpha helix motifs originating from each domain. These two motifs form hydrogen bonds with a carboxylate group of the ligand, both directly and via conserved water molecules, and have thus been termed the carboxylate pincers. Domain 1 recognises the ligand and the carboxylate group serves as an initial anchoring point. Domain 2 discriminates between productively and non-productively bound ligands as proper interactions with this domain is needed for the of the closed conformation []. BugE has a glutamate bound ligand. No charged residues are involved in glutamate binding by BugE, unlike what has been described for all glutamate receptors reported so far. The Bug architecture is highly conserved despite limited sequence identity [].; GO: 0030288 outer membrane-bounded periplasmic space; PDB: 2QPQ_C 2DVZ_A 2F5X_A.
Probab=80.44 E-value=7.8 Score=38.69 Aligned_cols=135 Identities=21% Similarity=0.158 Sum_probs=80.6
Q ss_pred EEEEEEEcCCCCCCccccCC------C--CccCCCCCCCCcchHHHHHHHHcCccCCCCCCccccccccCCCCCccCCCC
Q psy11919 213 LAVAVVKKDSKVQNFEDLRG------L--KSCHSGYMDSSGWVAPVYHLLEKGLIKNDVCPYYKGVEQFFSGGSCVPGLE 284 (453)
Q Consensus 213 ~aVAVVkk~s~~~sl~dLkG------K--KsCHtG~g~taGW~~Pv~~L~~~g~I~~~~C~~~kavs~FFs~~SC~PG~~ 284 (453)
..|-||++++++.+++||-. . +.-++| .++.+++....|.+.--++. +. +
T Consensus 79 ~~vl~v~~dsp~~t~~eli~~ak~~p~~~~~g~~g--~g~~~hl~~~~l~~~~G~~~------~~----------V---- 136 (274)
T PF03401_consen 79 PNVLVVRADSPYKTLEELIEYAKANPGKLTFGSSG--PGSSDHLAAALLAKAAGIKF------TH----------V---- 136 (274)
T ss_dssp EEEEEEETTSS-SSHHHHHHHHHCSCCC-EEEESS--TTSHHHHHHHHHHHHHT---------EE----------E----
T ss_pred ceEEEEeCCCccccHHHHHHHHHhCCCCeEEEecC--CCchHHHHHHHHHHHhCCce------EE----------E----
Confidence 66778899999999999821 2 222333 33445665555554311210 00 1
Q ss_pred cccCCCCccccccccCCcccc-ccchhhhhhcCCCcEEEEechhhHHHHhcCCCCCCceEEecCCCC-CccCC-C---Cc
Q psy11919 285 EKEKSESPSLEKICHNITTIF-ATNTLQCLKMGDADVAFTNQVKVNEAIEEGIFKVDEIEFLCSKGG-RAPVS-K---AA 358 (453)
Q Consensus 285 ~~~~n~~~nLC~lC~g~d~Y~-~~GAlrCL~eG~GDVAFVk~~tV~~~~~~~~~~~~dy~LLCpdGs-r~pi~-~---~~ 358 (453)
+|. -..++.-|..|+.|++|.....+..++.. .+.+.||--+. |.+.- + .+
T Consensus 137 ------------------py~G~~~~~~allgG~vd~~~~~~~~~~~~~~~-----G~~k~Lav~~~~r~~~~pdvPT~~ 193 (274)
T PF03401_consen 137 ------------------PYDGGAEALTALLGGHVDAAFGSPGEALPYVEA-----GDLKPLAVFSDERSPALPDVPTFK 193 (274)
T ss_dssp ------------------E-SSHHHHHHHHHTTSSSEEEEEHHHHHHHHHT-----TSEEEEEECSSS-BTTCTTS-BTT
T ss_pred ------------------EeCCccHHHHHHhCCeeeEEeecHHHHHHHHhC-----CCceEEEEecCccccccCCCCCHH
Confidence 122 34578899999999999999888886543 56676665543 22110 1 00
Q ss_pred C--C-cccccCCceEEEcCCCChhHHHHHHHHHHHHH
Q psy11919 359 D--C-NLGVVPPHMVVTSNSKSNMEIDIIKHAIITAA 392 (453)
Q Consensus 359 ~--C-nl~~vP~~aVvtr~~~~~~~~~~I~~lL~~l~ 392 (453)
. = .+....|++++++++.+++.++.+..++.++.
T Consensus 194 E~G~~d~~~~~~~g~~~p~gtp~~~~~~l~~a~~~~~ 230 (274)
T PF03401_consen 194 EQGYPDIVFGSWRGLFAPKGTPDEIVDKLADAIKKAL 230 (274)
T ss_dssp TTT-TTG--EEEEEEEEETTS-HHHHHHHHHHHHHHH
T ss_pred HhCccceeeeeeeeeecCCCCCHHHHHHHHHHHHHHh
Confidence 0 1 34556799999999999877778877777654
No 15
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=58.40 E-value=96 Score=31.16 Aligned_cols=70 Identities=14% Similarity=0.158 Sum_probs=41.1
Q ss_pred ccchhhhhhcCCCcEEEEechhhHHHHhcCCCCCCceEEecCCCCCccCCCCcCCcccccCCceEEEcCCCChhHHHHHH
Q psy11919 306 ATNTLQCLKMGDADVAFTNQVKVNEAIEEGIFKVDEIEFLCSKGGRAPVSKAADCNLGVVPPHMVVTSNSKSNMEIDIIK 385 (453)
Q Consensus 306 ~~GAlrCL~eG~GDVAFVk~~tV~~~~~~~~~~~~dy~LLCpdGsr~pi~~~~~Cnl~~vP~~aVvtr~~~~~~~~~~I~ 385 (453)
..-+++-|.+|..|++++....+...... ....+.++++ +. ++ ..+.-+++.|++.+ ..++.|.
T Consensus 187 ~~~~l~~L~~GrvDa~i~d~~~~~~~~~~-~~~~~~l~i~---~~--~~---------~~~~~~~a~~k~~~-~L~~~in 250 (302)
T PRK10797 187 HGDSFRTLESGRAVAFMMDDALLAGERAK-AKKPDNWEIV---GK--PQ---------SQEAYGCMLRKDDP-QFKKLMD 250 (302)
T ss_pred HHHHHHHHHcCCceEEEccHHHHHHHHHc-CCCCcceEEC---Cc--cC---------CcCceeEEEeCCCH-HHHHHHH
Confidence 45688999999999998877655432222 1223456654 10 11 12234566676543 4566777
Q ss_pred HHHHHH
Q psy11919 386 HAIITA 391 (453)
Q Consensus 386 ~lL~~l 391 (453)
.+|.++
T Consensus 251 ~~L~~l 256 (302)
T PRK10797 251 DTIAQA 256 (302)
T ss_pred HHHHHH
Confidence 777765
No 16
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=52.35 E-value=10 Score=39.43 Aligned_cols=112 Identities=13% Similarity=-0.036 Sum_probs=65.2
Q ss_pred ccccccccccCccCc------hhhhhhhhhhccccCCCccceeeeccCCChhhhhh------hceeccCCCcccccccc-
Q psy11919 127 VLTADWRQYLPVYSN------LASCKLRSATHYQVDLTDISHWRRSSRNSSVKCLY------QDYLVNRFGSLGGAAKS- 193 (453)
Q Consensus 127 ~~tvrW~~~~CV~s~------leKC~~~~a~~~~~~i~pi~~~~CV~a~S~~dCl~------AD~~v~daed~~~A~k~- 193 (453)
++.|+| --+-++- ..=|++... +.+. ..|.-+...-+++=|+ +|+..+..+-.|.|-+-
T Consensus 25 ~~~iti--gTG~~~G~YY~ig~~ia~~~~~-----~~~~-i~~~v~~tggSv~Nl~~i~~Ge~d~alvq~d~a~~ay~G~ 96 (321)
T COG2358 25 PKFITI--GTGSTGGVYYPIGGGLAQLLNK-----DEKG-IECSVVPTGGSVENLKLLASGEADLALVQSDVAYEAYNGT 96 (321)
T ss_pred ceEEEE--eecCCCceeeehHHHHHHHHhc-----cCCC-eEEEEeeccchHHHHHhHhcCccchhhhhHHHHHHHHhCc
Confidence 678888 2122221 225554443 3334 3555566666777775 78877766544443321
Q ss_pred ccccc-c---cc--cccccCCCCcEEEEEEEEcCCCCCCccccCCCCccCCCCCCCCcchHHH
Q psy11919 194 VWLPF-Q---CR--NLEKYGNEKDLLAVAVVKKDSKVQNFEDLRGLKSCHSGYMDSSGWVAPV 250 (453)
Q Consensus 194 ~l~~~-~---pi--~~E~y~~~~~~~aVAVVkk~s~~~sl~dLkGKKsCHtG~g~taGW~~Pv 250 (453)
...+. + ++ +.-.|.+ +.=.|+|+++.|++|.||+|||.--...|++..-++..
T Consensus 97 g~f~~~~~~~~lr~v~~lype----~~~vv~r~d~~Ikti~DL~GKrV~iG~~gSgt~~~a~~ 155 (321)
T COG2358 97 GSFEGKGKDENLRAVAALYPE----PFHVVTRKDAGIKTIADLKGKRVAIGPPGSGTEATARQ 155 (321)
T ss_pred ccccccccccchhhheecccc----eEEEEEecCCCcceehhcCCCEEeecCCCCccHHHHHH
Confidence 00010 0 00 2223321 67788999999999999999999888888776655543
No 17
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=50.37 E-value=13 Score=37.00 Aligned_cols=77 Identities=23% Similarity=0.177 Sum_probs=44.6
Q ss_pred hceeccCCCccc--ccccccccccccccccccCCCCcEEEEEEEEcCCCCCCccccCCCCccCCCCCCCCcchHHHHHHH
Q psy11919 177 QDYLVNRFGSLG--GAAKSVWLPFQCRNLEKYGNEKDLLAVAVVKKDSKVQNFEDLRGLKSCHSGYMDSSGWVAPVYHLL 254 (453)
Q Consensus 177 AD~~v~daed~~--~A~k~~l~~~~pi~~E~y~~~~~~~aVAVVkk~s~~~sl~dLkGKKsCHtG~g~taGW~~Pv~~L~ 254 (453)
.|+++.-.+... .++.... |++-+.....+. .-..-++++++++.+++||||||...+..+++.-+ .-...|.
T Consensus 83 ~D~a~~~~~~~~~~~~~~~g~-pv~~va~~~~~~---~~~~i~~~~~~~i~~~adlkGk~vg~~~~~~~~~~-~l~~~L~ 157 (335)
T COG0715 83 LDFAVYYTGDTPLIAAGAAGA-PVKVVAALVQNG---NGIALLVLKDSGIKSVADLKGKKVGVPFGGSTSDF-LLRYALA 157 (335)
T ss_pred cCccccccCchHHHHhhccCC-CeEEeeecccCC---ceeEEEeccCCCcccccCCCCceEEEeCCCchHHH-HHHHHHH
Confidence 788865555543 2222222 433333333321 13455677788889999999999999998863322 2244455
Q ss_pred HcCc
Q psy11919 255 EKGL 258 (453)
Q Consensus 255 ~~g~ 258 (453)
+.|+
T Consensus 158 ~~Gl 161 (335)
T COG0715 158 KAGL 161 (335)
T ss_pred HcCC
Confidence 5553
No 18
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=38.55 E-value=34 Score=34.45 Aligned_cols=110 Identities=22% Similarity=0.152 Sum_probs=58.5
Q ss_pred hceeccCCCcccccccccccccccccccccCCCCcEEEEEEEEcCCCCCCccccCCCCccCCCCCCCCcchHHHHHHHHc
Q psy11919 177 QDYLVNRFGSLGGAAKSVWLPFQCRNLEKYGNEKDLLAVAVVKKDSKVQNFEDLRGLKSCHSGYMDSSGWVAPVYHLLEK 256 (453)
Q Consensus 177 AD~~v~daed~~~A~k~~l~~~~pi~~E~y~~~~~~~aVAVVkk~s~~~sl~dLkGKKsCHtG~g~taGW~~Pv~~L~~~ 256 (453)
+|++......+..+.... .+++-+....+.. .-.+.|+++ ++.+++||||||.-.+.. +.++.+....|.+.
T Consensus 73 ~D~a~~~~~~~~~a~~~g-~~~~~v~~~~~~~---~~~~lv~~~--~I~s~~DLkGK~Iav~~~--s~~~~~l~~~L~~~ 144 (320)
T PRK11480 73 VQIGNLGSSPLAVAASQQ-VPIEVFLLASKLG---NSEALVVKK--TISKPEDLIGKRIAVPFI--STTHYSLLAALKHW 144 (320)
T ss_pred CCEECcCchHHHHHHHCC-CCeEEEEeeccCC---cceEEEecC--CCCChHHcCCCEEecCCC--CchHHHHHHHHHHc
Confidence 798877665554443222 2333222222211 112234453 489999999999877543 23344445666666
Q ss_pred CccCCCCCCccccccccCCCCCccCCCCcccCCCCccccccccCCccccccchhhhhhcCCCcEEEEechhhHH
Q psy11919 257 GLIKNDVCPYYKGVEQFFSGGSCVPGLEEKEKSESPSLEKICHNITTIFATNTLQCLKMGDADVAFTNQVKVNE 330 (453)
Q Consensus 257 g~I~~~~C~~~kavs~FFs~~SC~PG~~~~~~n~~~nLC~lC~g~d~Y~~~GAlrCL~eG~GDVAFVk~~tV~~ 330 (453)
|+ +.. .+ ++.. .+ ...+...|..|..|.+++-...+.+
T Consensus 145 Gl-~~~------dv-~~v~----~~------------------------~~~~~~Al~~G~VDAa~~~~p~~~~ 182 (320)
T PRK11480 145 GI-KPG------QV-EIVN----LQ------------------------PPAIIAAWQRGDIDGAYVWAPAVNA 182 (320)
T ss_pred CC-CHh------he-EEEE----CC------------------------cHHHHHHHHcCCcCEEEEcchHHHH
Confidence 53 211 11 1111 00 2235678889999999886655443
No 19
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=34.33 E-value=97 Score=29.83 Aligned_cols=131 Identities=18% Similarity=0.110 Sum_probs=69.2
Q ss_pred EEEEEEcC----CCCCCcccc-------CCCCccCCCCCCCCcchHHHHHHHHcCccCC-CCCCccccccccCCCCCccC
Q psy11919 214 AVAVVKKD----SKVQNFEDL-------RGLKSCHSGYMDSSGWVAPVYHLLEKGLIKN-DVCPYYKGVEQFFSGGSCVP 281 (453)
Q Consensus 214 aVAVVkk~----s~~~sl~dL-------kGKKsCHtG~g~taGW~~Pv~~L~~~g~I~~-~~C~~~kavs~FFs~~SC~P 281 (453)
...||+++ +.+.+++|| ||||.--+..++ +..+-+..++++.-+++ .+ ++- .+++
T Consensus 92 ~~lvv~~~~~~~~~~~~~~dl~~~~~~~kGk~i~~~~~gs--~~~~~l~~~l~~~Gl~~~~d---v~~--~~~~------ 158 (252)
T PF13379_consen 92 NALVVRNDLKDASDIKSLADLIKKRKAQKGKKIAVPFPGS--THDMLLRYLLKKAGLDPKDD---VTL--VNVP------ 158 (252)
T ss_dssp EEEEECGGGTTCSTTCCGHHHHHTCCSCSTEEEEESSTTS--HHHHHHHHHHHHTT--TTTS---SEE--EE--------
T ss_pred eEEEEcCccccCCCccCHHHHHhhhcccCCcEEEEcCCCC--HHHHHHHHHHHhCCCCcccc---eEE--EecC------
Confidence 34567765 778999999 999976655552 33444554444322332 11 000 0111
Q ss_pred CCCcccCCCCccccccccCCccccccchhhhhhcCCCcEEEEechhhHHHHhcCCCCCCceEEecCCCCCccCCCCcCCc
Q psy11919 282 GLEEKEKSESPSLEKICHNITTIFATNTLQCLKMGDADVAFTNQVKVNEAIEEGIFKVDEIEFLCSKGGRAPVSKAADCN 361 (453)
Q Consensus 282 G~~~~~~n~~~nLC~lC~g~d~Y~~~GAlrCL~eG~GDVAFVk~~tV~~~~~~~~~~~~dy~LLCpdGsr~pi~~~~~Cn 361 (453)
...+...|.+|+.|.+++..-.....-.. . .-+.++-. ..+
T Consensus 159 ------------------------~~~~~~al~~g~iDa~~~~eP~~~~~~~~-g---~g~~v~~~----~~~------- 199 (252)
T PF13379_consen 159 ------------------------PPEMVAALRAGEIDAAVLWEPFASQAEAK-G---IGKIVADS----GDV------- 199 (252)
T ss_dssp ------------------------GHHHHHHHHTTS-SEEEEETTHHHHHHHT-T---S-EEEEEH----HHC-------
T ss_pred ------------------------HHHHHHHHhCCCcCEEEecCCHHHHHHhc-c---CCeEEEEe----ccc-------
Confidence 33567889999999999977665553222 1 11566611 111
Q ss_pred ccccCCceEEEcCCCChhHHHH---HHHHHHHHHHHhc
Q psy11919 362 LGVVPPHMVVTSNSKSNMEIDI---IKHAIITAADLFS 396 (453)
Q Consensus 362 l~~vP~~aVvtr~~~~~~~~~~---I~~lL~~l~~lFG 396 (453)
|+..|.-.+++|++.-+...+. +.+.+.+..++..
T Consensus 200 ~~~~p~~~~~~~~~~~~~~p~~v~~~~~a~~~A~~~~~ 237 (252)
T PF13379_consen 200 WGNHPCCVIVARRDFLEENPEAVKAFLEALQEAQRWIN 237 (252)
T ss_dssp STT-B-EEEEEEHHHHHH-HHHHHHHHHHHHHHHHHHH
T ss_pred cCCCCeEEEEECHHHHHHCHHHHHHHHHHHHHHHHHHH
Confidence 3444666688888664433334 4444455555544
No 20
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=28.64 E-value=5.1e+02 Score=24.47 Aligned_cols=70 Identities=11% Similarity=0.069 Sum_probs=39.6
Q ss_pred ccchhhhhhcCCCcEEEEechhhHHHHhcCCCCCCceEEecCCCCCccCCCCcCCcccccCCceEEEcCCCChhHHHHHH
Q psy11919 306 ATNTLQCLKMGDADVAFTNQVKVNEAIEEGIFKVDEIEFLCSKGGRAPVSKAADCNLGVVPPHMVVTSNSKSNMEIDIIK 385 (453)
Q Consensus 306 ~~GAlrCL~eG~GDVAFVk~~tV~~~~~~~~~~~~dy~LLCpdGsr~pi~~~~~Cnl~~vP~~aVvtr~~~~~~~~~~I~ 385 (453)
+.-+++-|..|..|++......+...... ....+++++=. ++ ....-.++.+++. ..++.+.
T Consensus 161 ~~~~~~~L~~grvDa~i~~~~~~~~~~~~--~~~~~~~~~~~-----~~---------~~~~~~~a~~~~~--~l~~~~n 222 (247)
T PRK09495 161 IDNAYLELGTGRADAVLHDTPNILYFIKT--AGNGQFKAVGD-----SL---------EAQQYGIAFPKGS--ELREKVN 222 (247)
T ss_pred HHHHHHHHHcCceeEEEeChHHHHHHHHh--CCCCceEEecC-----cc---------cccceEEEEcCcH--HHHHHHH
Confidence 44578889999999999887666543322 22345555411 11 1112344455544 3556777
Q ss_pred HHHHHHHH
Q psy11919 386 HAIITAAD 393 (453)
Q Consensus 386 ~lL~~l~~ 393 (453)
+.|..+.+
T Consensus 223 ~al~~~~~ 230 (247)
T PRK09495 223 GALKTLKE 230 (247)
T ss_pred HHHHHHHH
Confidence 77776653
No 21
>COG3181 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.64 E-value=1.5e+02 Score=30.99 Aligned_cols=80 Identities=14% Similarity=0.093 Sum_probs=58.6
Q ss_pred hhhhhhcCCCcEEEEechhhHHHHhcCCCCCCceEEecCCCCCccCC--CCcCC-----cccccCCceEEEcCCCChhHH
Q psy11919 309 TLQCLKMGDADVAFTNQVKVNEAIEEGIFKVDEIEFLCSKGGRAPVS--KAADC-----NLGVVPPHMVVTSNSKSNMEI 381 (453)
Q Consensus 309 AlrCL~eG~GDVAFVk~~tV~~~~~~~~~~~~dy~LLCpdGsr~pi~--~~~~C-----nl~~vP~~aVvtr~~~~~~~~ 381 (453)
|+.-|.-|+.|+++....++..++. ..+.++||--...+... +--+| -..+.-|++|++.+..+.+.+
T Consensus 188 a~taLlgg~v~a~~~~~se~~~~vk-----sG~lr~Lav~s~eRl~~~pdvPT~~E~G~~~~~~~wrgvfap~g~~~e~~ 262 (319)
T COG3181 188 ALTALLGGHVDAGSTNLSELLSQVK-----SGTLRLLAVFSEERLPGLPDVPTLKEQGYDVVMSIWRGVFAPAGTPDEII 262 (319)
T ss_pred HHHHHhcCceeeeecChhhhhhhhc-----cCceEEEEeechhhcCCCCCCCChHhcCCceeeeeeeEEEeCCCCCHHHH
Confidence 8888999999999999988887543 46788998776433322 11111 112678999999999998888
Q ss_pred HHHHHHHHHHHH
Q psy11919 382 DIIKHAIITAAD 393 (453)
Q Consensus 382 ~~I~~lL~~l~~ 393 (453)
+.+...|.++.+
T Consensus 263 ~~~~~a~kk~l~ 274 (319)
T COG3181 263 AKLSAALKKALA 274 (319)
T ss_pred HHHHHHHHHHhc
Confidence 888888877653
No 22
>PF06395 CDC24: CDC24 Calponin; InterPro: IPR010481 This is a calponin homology domain.
Probab=24.60 E-value=75 Score=27.30 Aligned_cols=40 Identities=15% Similarity=0.271 Sum_probs=28.8
Q ss_pred hHHHHHHHHHHHHHHHhc-CCCCcccccCCCCCCCCccccCCCCccccC
Q psy11919 379 MEIDIIKHAIITAADLFS-KKPEIFKLFGSFMGKPDVLFLNPATGVESL 426 (453)
Q Consensus 379 ~~~~~I~~lL~~l~~lFG-~~~~~F~LF~S~~~~kNLLF~DsT~~L~~v 426 (453)
..+..|+++++...+.++ ...+.|.+ .|| |.|+|.+|+.+
T Consensus 41 ~~K~ai~~Fi~ack~~L~~~~~e~FtI-------sdl-~~~dT~gfvKV 81 (89)
T PF06395_consen 41 VCKKAIYKFIQACKQELGFPDEELFTI-------SDL-YGDDTNGFVKV 81 (89)
T ss_pred HHHHHHHHHHHHHHHhcCCCccceeee-------ecc-ccCCCcchhhH
Confidence 345789999999888777 44444443 556 78899999865
No 23
>PF11901 DUF3421: Protein of unknown function (DUF3421); InterPro: IPR024518 This domain of unknown function is found in the fish toxin Natterin [] and in uncharacterised proteins.
Probab=21.88 E-value=46 Score=29.45 Aligned_cols=36 Identities=22% Similarity=0.363 Sum_probs=26.3
Q ss_pred CCCCceEEecCCCCCccCCCCcCCcccccCCceEEEcCC
Q psy11919 337 FKVDEIEFLCSKGGRAPVSKAADCNLGVVPPHMVVTSNS 375 (453)
Q Consensus 337 ~~~~dy~LLCpdGsr~pi~~~~~Cnl~~vP~~aVvtr~~ 375 (453)
...++|++||-++.. -.|.++.=+.+|.++|++=.+
T Consensus 43 ~~~~~yEVL~~~~~~---~~Wv~~~~g~iP~~av~~G~~ 78 (119)
T PF11901_consen 43 HSKTNYEVLCGDDNF---YEWVPSSDGNIPPNAVVGGRT 78 (119)
T ss_pred EEeceEEeecCCCCc---cEEEECCCCCcCCCcEEcccc
Confidence 335789999998752 346666668899999987544
No 24
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=20.28 E-value=73 Score=31.95 Aligned_cols=24 Identities=38% Similarity=0.397 Sum_probs=20.2
Q ss_pred EEEEEEEcCCCCCCccccCCCCcc
Q psy11919 213 LAVAVVKKDSKVQNFEDLRGLKSC 236 (453)
Q Consensus 213 ~aVAVVkk~s~~~sl~dLkGKKsC 236 (453)
..+.+|++++++.+++||+||+..
T Consensus 94 ~lvvvvp~~~~i~sl~DL~Gk~ia 117 (287)
T PRK00489 94 RLVLAVPEDSDWQGVEDLAGKRIA 117 (287)
T ss_pred EEEEEEECCCCCCChHHhCCCEEE
Confidence 677788889899999999999544
Done!